Ali Sajid ImamiDo you mean this one? Papercuts Call 3: Americas
12:00 US ?
12:00 US ?
I joined but there was no one there.
I've started goign through issues and working on them though.
Ali Sajid ImamiI see, I didn't attend this one, so unfortunately, I can't say what happened. Definitely it's great that you are working on issues as it's a significant part of paper cuts event👍️. This channel is also a place where you can ask questions
Hi guys, I have questions. I have been using the Galaxy Australia (metatranscriptomics -extended version), and I found that in the section "Regroup HUMAnN table features", galaxy did not allow to select the option:
“Mapping to use for the grouping”: Mapping (full) for Gene Ontology (GO) from UniRef90" if anyone had the same issue? Thanks in advance.
“Mapping to use for the grouping”: Mapping (full) for Gene Ontology (GO) from UniRef90" if anyone had the same issue? Thanks in advance.
how do i contact admins?
GPU are expensive and get abused a lot, so we are hesitant to give them out.
GTN News for Nov 24
Big News!
1 new tutorials!
7 new contributors!
Regarding the GTN Video Library (see post by the bot above): if you are an instructor and you have recorded a video, and it is not available from the corresponding GTN tutorial as described above, please let us know and we will fix/add it!
GTN News for Nov 25
Big News!
4 new contributors!
urgh, some duplicates. I guess my
git diff line is wrong then.
I wrote it in a silly way, it's my fault. I used git to tell me what changes were done in the last 24h and I really should've done it the proper way by storing somewhere the commit it last ran at.
laziness
Does someone know why in the mothur tutorial silva is used for alignment and rdp for taxonomic classification?
GTN News for Dec 02
Big News!
- New FAQs: How does the GTN stay FAIR and Collaborative
- New Tutorials: PacBio data QC and Genome Assembly, and Genome Annotation with Funannotate
1 new tutorials!
1 new slides!
https://developer.mozilla.org/en-US/docs/Tools/Accessibility_inspector/Simulation firefox has a fun new built-in tool for colour deficiency simulation
I spot checked a few pages on the GTN and they look OK even under low-contrast mode
the only thing to check I think is the yellow colour for intermediate
GTN News for Dec 07
Big News!
- New Feature: GTN Video Library
- New FAQs: How does the GTN stay FAIR and Collaborative
- New Tutorials: PacBio data QC and Genome Assembly, and Genome Annotation with Funannotate
4 new tutorials!
- Genome assembly using PacBio data
- Genome annotation with Funannotate
- Masking repeats with RepeatMasker
- Image classification in Galaxy with fruit 360 dataset
2 new slides!
- An introduction to get started in genome assembly and annotation
- Image classification in Galaxy with fruit 360 dataset
4 new contributors!
Hi! Looking into using https://training.galaxyproject.org/training-material/topics/dev/tutorials/tool-from-scratch/tutorial.html#creating-a-pull-request for a small meeting this week
the tutorial is showing how to make a PR to bioconda -> should we ask users to add a specific label to ensure bioconda is not polluted with duplicate bellerophon packages?
just preview it or so? (but yes, it's a risk.)
thanks Anthony Bretaudeau !
looks like the mentioned liquid checking for strict variables will mean a lot of work, unfortunately. I'm not sure how easy it'll be to start doing that.
it starts with a bunch of small template stuff like
{% if page.cover %} has to be {% if page contains "cover" %} which is way less readable for me
and even if you set
error_mode: warn (the default) it still crashes if you've set strict_variables
yeah I think this is a no-go :( we'll have to keep catching those manually.
Hi all,
We are working for more than 2 years now on paper to present the GTN to instructors.
We think it is almost ready to be send. But we would like the feedback from the community first.
If you want to participate, please before the 10th of January:
- open the document at: https://www.overleaf.com/5685435963xxydhyqdnwmj
- read the paper
- add your comments / suggestions in the document
- add your name
- reach us if you have any major concerns
Thank you!
Hi all, I am trying to create a workflow in which I use the output of "Compute sequence length" as an input for the "Replace text", but I cannot make a connection in the workflow because of datatype differences (I think...). Specifcally, I calculate a sequence length, I use "Cut" to select only the sequence length from the output and I would like to use this as an input for "Replace text". I think "Replace text" requires a simple text input wheareas my output of "Compute sequence length" and "Cut" is tabular. I have tried converting the format of the output to "txt" but I still cannot make the connection. Does anyone have any suggestions on a workaround?
There should be an error message that pops up when the connection fails, can you share that @Ollie_W_White_twitter
1 reply
ah weird. It could be because of up or downstream connections. You might try removeing the other connections, and seeing if you can connect just the cut output
11 replies